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Dicty_cDB
Contig List | Clone List | cDNA Library List
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U13159-1
Contig ID Contig-U13159-1
Contig update 2002.12.18
Contig sequence 
>Contig-U13159-1 (Contig-U13159-1Q) /CSM_Contig/Contig-U13159-1Q.Seq.d
NNNNNNNNNNTNAAAAAGGGACTTGNGAGTTTGNTGATTTNGATCCNAAA
CCNTTNNTTTGNAAAACTGNTGCTGNTGTTTCANTTGGNGNTGCTGTTGG
NGNTGCTGTTGGNGGGGCNANTGCNCTTGGGGTNTTTANTTTTGGTGGNA
AAAAAGGTTNTGNCTACTGGAAANCAAGTCAAGGNGNTNCNANGGCCNCN
TNAAANGCCNATCCCCTTTANGAAANCNATCCNTCAGGNGGNGAAAANNC
NATTTNTNCTAGCCCCNA
Gap no gap
Contig length 268
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 1
Link to clone list U13159
List of clone(s) 

est1=CHR716Z,1,259
Translated Amino Acid sequence 
XXXXKKGLXSLXIXIXNXXFXKLXLXFXLXXLLXXLLXGXXXLGXLXLVXKKVXXTGXQV
KXXXXPXXXPIPFXKXIXQXXKXXFXLAP
Translated Amino Acid sequence (All Frames) 
Frame A:
XXXXKKGLXSLXIXIXNXXFXKLXLXFXLXXLLXXLLXGXXXLGXLXLVXKKVXXTGXQV
KXXXXPXXXPIPFXKXIXQXXKXXFXLAP


Frame B:
xxxxkrdlxvx*fxsxtxxlxnxcxcfxwxccwxccwxgxcxwgxxfwwxkrxxllexks
rxxxgxxkxxsplxxxsxrxxkxxxx*px


Frame C:
xxxxkgtxefxdxdpkpxxxktxaxvsxgxavgxavggaxalgvfxfggkkgxxywkxsq
gxxxaxxxaxplxexxpsggexxixxsp
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U13159-1 (Contig-U13159-1Q)
/CSM_Contig/Contig-U13159-1Q.Seq.d
         (268 letters)

Database: CSM
           6905 sequences; 5,674,871 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U13159-1 (Contig-U13159-1Q) /CSM_Contig/Conti...   230  6e-61
Contig-U11508-1 (Contig-U11508-1Q) /CSM_Contig/Conti...   198  2e-51
Contig-U12623-1 (Contig-U12623-1Q) /CSM_Contig/Conti...   163  1e-40
Contig-U12652-1 (Contig-U12652-1Q) /CSM_Contig/Conti...   151  4e-37
Contig-U12668-1 (Contig-U12668-1Q) /CSM_Contig/Conti...   141  4e-34
Contig-U13082-1 (Contig-U13082-1Q) /CSM_Contig/Conti...   127  6e-30

>Contig-U13159-1 (Contig-U13159-1Q) /CSM_Contig/Contig-U13159-1Q.Seq.d
          Length = 268

 Score =  230 bits (116), Expect = 6e-61
 Identities = 254/254 (100%)
 Strand = Plus / Plus

                                                                       
Query: 13  aaaaagggacttgngagtttgntgatttngatccnaaaccnttnntttgnaaaactgntg 72
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13  aaaaagggacttgngagtttgntgatttngatccnaaaccnttnntttgnaaaactgntg 72

                                                                       
Query: 73  ctgntgtttcanttggngntgctgttggngntgctgttggnggggcnantgcncttgggg 132
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73  ctgntgtttcanttggngntgctgttggngntgctgttggnggggcnantgcncttgggg 132

                                                                       
Query: 133 tntttanttttggtggnaaaaaaggttntgnctactggaaancaagtcaaggngntncna 192
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 133 tntttanttttggtggnaaaaaaggttntgnctactggaaancaagtcaaggngntncna 192

                                                                       
Query: 193 nggccncntnaaangccnatcccctttangaaancnatccntcaggnggngaaaanncna 252
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 193 nggccncntnaaangccnatcccctttangaaancnatccntcaggnggngaaaanncna 252

                         
Query: 253 tttntnctagcccc 266
           ||||||||||||||
Sbjct: 253 tttntnctagcccc 266


>Contig-U11508-1 (Contig-U11508-1Q) /CSM_Contig/Contig-U11508-1Q.Seq.d
          Length = 1223

 Score =  198 bits (100), Expect = 2e-51
 Identities = 228/235 (97%)
 Strand = Plus / Plus

                                                                        
Query: 13   aaaaagggacttgngagtttgntgatttngatccnaaaccnttnntttgnaaaactgntg 72
            |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 987  aaaaagggacttgngagtttgntgatttngatccnaaaccnttnntttgnaaaantgntg 1046

                                                                        
Query: 73   ctgntgtttcanttggngntgctgttggngntgctgttggnggggcnantgcncttgggg 132
             |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1047 ntgntgtttcanttggngntgctgttggngntgctgttggnggggcnantgcncttgggg 1106

                                                                        
Query: 133  tntttanttttggtggnaaaaaaggttntgnctactggaaancaagtcaaggngntncna 192
            | ||||||||||||||||||||||||||||||| ||||||||||| |||||||||||| |
Sbjct: 1107 tttttanttttggtggnaaaaaaggttntgnctnctggaaancaantcaaggngntncaa 1166

                                                                   
Query: 193  nggccncntnaaangccnatcccctttangaaancnatccntcaggnggngaaaa 247
            ||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1167 nggccncatnaaangccnatcccctttangaaancnatccntcaggnggngaaaa 1221


>Contig-U12623-1 (Contig-U12623-1Q) /CSM_Contig/Contig-U12623-1Q.Seq.d
          Length = 170

 Score =  163 bits (82), Expect = 1e-40
 Identities = 156/160 (97%)
 Strand = Plus / Plus

                                                                       
Query: 13  aaaaagggacttgngagtttgntgatttngatccnaaaccnttnntttgnaaaactgntg 72
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 11  aaaaagggacttgngagtttgntgatttngatccnaaaccnttnntttgnaaaactgntg 70

                                                                       
Query: 73  ctgntgtttcanttggngntgctgttggngntgctgttggnggggcnantgcncttgggg 132
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71  ctgntgtttcagttggngntgctgttggngntgctgttggnggggcnantgcncttgggg 130

                                                   
Query: 133 tntttanttttggtggnaaaaaaggttntgnctactggaa 172
           | ||||||||||||||||||||||| ||||||| ||||||
Sbjct: 131 tttttanttttggtggnaaaaaaggntntgnctnctggaa 170


  Database: CSM
    Posted date:  Jun 9, 2004  7:35 PM
  Number of letters in database: 5,674,871
  Number of sequences in database:  6905
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 7
Number of Sequences: 6905
Number of extensions: 7
Number of successful extensions: 7
Number of sequences better than 10.0: 6
length of query: 268
length of database: 5,674,871
effective HSP length: 15
effective length of query: 253
effective length of database: 5,571,296
effective search space: 1409537888
effective search space used: 1409537888
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2008.12. 6
Homology vs DNA 
Query= Contig-U13159-1 (Contig-U13159-1Q) /CSM_Contig/Contig-U13159-1Q.Seq.d
         (268 letters)

Database: ddbj_A
           92,845,959 sequences; 95,242,211,685 total letters

Searching..................................................done

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(BJ386119) Dictyostelium discoideum cDNA clone:ddc57p03, 3' ...   103   2e-28  2
(BJ356375) Dictyostelium discoideum cDNA clone:dda60j02, 3' ...    92   7e-25  2
(BJ349935) Dictyostelium discoideum cDNA clone:dda38k03, 3' ...    80   2e-19  2
(BJ383148) Dictyostelium discoideum cDNA clone:ddc52c06, 3' ...    78   2e-15  2
(BJ350736) Dictyostelium discoideum cDNA clone:dda40i20, 3' ...    66   3e-15  2
(BJ349007) Dictyostelium discoideum cDNA clone:dda35f06, 3' ...    56   2e-14  2
(BJ381587) Dictyostelium discoideum cDNA clone:ddc42b03, 3' ...    86   7e-13  1
(BJ381367) Dictyostelium discoideum cDNA clone:ddc41e12, 3' ...    86   7e-13  1
(BJ357269) Dictyostelium discoideum cDNA clone:dda63a06, 3' ...    86   7e-13  1
(BJ355277) Dictyostelium discoideum cDNA clone:dda56e10, 3' ...    86   7e-13  1
(BJ355166) Dictyostelium discoideum cDNA clone:dda55o20, 3' ...    86   7e-13  1
(BJ354405) Dictyostelium discoideum cDNA clone:dda53c15, 3' ...    86   7e-13  1
(BJ349050) Dictyostelium discoideum cDNA clone:dda35p06, 3' ...    86   7e-13  1
(BJ384031) Dictyostelium discoideum cDNA clone:ddc48b05, 3' ...    80   4e-11  1
(BJ356617) Dictyostelium discoideum cDNA clone:dda60k20, 3' ...    80   4e-11  1
(BJ351505) Dictyostelium discoideum cDNA clone:dda43o14, 3' ...    80   4e-11  1
(BJ347868) Dictyostelium discoideum cDNA clone:dda31o07, 3' ...    80   4e-11  1
(BJ355132) Dictyostelium discoideum cDNA clone:dda55i19, 3' ...    78   2e-10  1
(BJ355112) Dictyostelium discoideum cDNA clone:dda55e19, 3' ...    78   2e-10  1
(BJ344622) Dictyostelium discoideum cDNA clone:dda19n24, 3' ...    78   2e-10  1
(AU052855) Dictyostelium discoideum slug cDNA, clone SLF214.       72   1e-08  1
(AU052790) Dictyostelium discoideum slug cDNA, clone SLF104.       72   1e-08  1
(AU039490) Dictyostelium discoideum slug cDNA, clone SLH882.       72   1e-08  1
(AU038832) Dictyostelium discoideum slug cDNA, clone SSL537.       72   1e-08  1
(AU034939) Dictyostelium discoideum slug cDNA, clone SLE370.       72   1e-08  1
(AU034927) Dictyostelium discoideum slug cDNA, clone SLE350.       72   1e-08  1
(AU034792) Dictyostelium discoideum slug cDNA, clone SLE336.       72   1e-08  1
(AU033699) Dictyostelium discoideum slug cDNA, clone SLB330.       72   1e-08  1
(AU033416) Dictyostelium discoideum slug cDNA, clone SLA743.       72   1e-08  1
(AU033415) Dictyostelium discoideum slug cDNA, clone SLA742.       72   1e-08  1
(C94367) Dictyostelium discoideum slug cDNA, clone SSK891.         72   1e-08  1
(C93110) Dictyostelium discoideum slug cDNA, clone SSM566.         72   1e-08  1
(C90537) Dictyostelium discoideum slug cDNA, clone SSI690.         72   1e-08  1
(C90536) Dictyostelium discoideum slug cDNA, clone SSI689.         72   1e-08  1
(BJ384266) Dictyostelium discoideum cDNA clone:ddc48h21, 3' ...    72   1e-08  1
(BJ339156) Dictyostelium discoideum cDNA clone:dda64i10, 5' ...    72   1e-08  1
(BJ338719) Dictyostelium discoideum cDNA clone:dda62a19, 5' ...    72   1e-08  1
(BJ331185) Dictyostelium discoideum cDNA clone:dda34a09, 5' ...    72   1e-08  1
(BJ384009) Dictyostelium discoideum cDNA clone:ddc47n19, 3' ...    68   2e-07  1
(BJ340281) Dictyostelium discoideum cDNA clone:dda12m12, 3' ...    64   3e-06  1
(BJ403785) Dictyostelium discoideum cDNA clone:dds26c12, 3' ...    56   6e-04  1
(BJ385455) Dictyostelium discoideum cDNA clone:ddc55c05, 3' ...    56   6e-04  1
(BJ384268) Dictyostelium discoideum cDNA clone:ddc48h23, 3' ...    56   6e-04  1
(BJ383184) Dictyostelium discoideum cDNA clone:ddc52l03, 3' ...    56   6e-04  1
(BJ378596) Dictyostelium discoideum cDNA clone:ddc32a11, 3' ...    56   6e-04  1
(BJ351535) Dictyostelium discoideum cDNA clone:dda43f20, 3' ...    56   6e-04  1
(BJ348030) Dictyostelium discoideum cDNA clone:dda31p19, 3' ...    56   6e-04  1
(BJ347995) Dictyostelium discoideum cDNA clone:dda31i21, 3' ...    56   6e-04  1
(BJ340050) Dictyostelium discoideum cDNA clone:dda11n12, 3' ...    54   0.003  1
(BJ348580) Dictyostelium discoideum cDNA clone:dda33m18, 3' ...    44   0.008  2
(BJ348106) Dictyostelium discoideum cDNA clone:dda32o04, 3' ...    52   0.010  1
(BJ356916) Dictyostelium discoideum cDNA clone:dda61j19, 3' ...    50   0.039  1
(BJ350162) Dictyostelium discoideum cDNA clone:dda38o23, 3' ...    50   0.039  1
(BJ348776) Dictyostelium discoideum cDNA clone:dda34g11, 3' ...    48   0.15   1
(BJ380657) Dictyostelium discoideum cDNA clone:ddc38j24, 3' ...    46   0.61   1
(BJ379481) Dictyostelium discoideum cDNA clone:ddc35b06, 3' ...    46   0.61   1
(BJ409767) Dictyostelium discoideum cDNA clone:dds42n05, 3' ...    44   2.4    1
(BJ381743) Dictyostelium discoideum cDNA clone:ddc42c15, 3' ...    44   2.4    1
(BJ378492) Dictyostelium discoideum cDNA clone:ddc31l02, 3' ...    44   2.4    1
(BJ378002) Dictyostelium discoideum cDNA clone:ddc26a24, 3' ...    42   9.5    1

>(BJ386119) Dictyostelium discoideum cDNA clone:ddc57p03, 3' end,
           single read.
          Length = 259

 Score =  103 bits (52), Expect(2) = 2e-28
 Identities = 115/115 (100%)
 Strand = Plus / Minus


Query: 122 tgcncttggggtntttanttttggtggnaaaaaaggttntgnctactggaaancaagtca 181
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 148 tgcncttggggtntttanttttggtggnaaaaaaggttntgnctactggaaancaagtca 89


Query: 182 aggngntncnanggccncntnaaangccnatcccctttangaaancnatccntca 236
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 88  aggngntncnanggccncntnaaangccnatcccctttangaaancnatccntca 34

 Score = 56.0 bits (28), Expect(2) = 2e-28
 Identities = 40/40 (100%)
 Strand = Plus / Minus


Query: 13  aaaaagggacttgngagtttgntgatttngatccnaaacc 52
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 257 aaaaagggacttgngagtttgntgatttngatccnaaacc 218

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 26,412,041
Number of extensions: 1217540
Number of successful extensions: 6660
Number of sequences better than 10.0: 63
Length of query: 268
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 245
Effective length of database: 93,106,754,628
Effective search space: 22811154883860
Effective search space used: 22811154883860
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7. 6
Homology vs Protein 
Query= Contig-U13159-1 (Contig-U13159-1Q) /CSM_Contig/Contig-U13159-1Q.Seq.d
         (268 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54P69) RecName: Full=Protein psiM; Flags: Precursor;                 33   4.0

>(Q54P69) RecName: Full=Protein psiM; Flags: Precursor;
          Length = 733

 Score = 32.7 bits (73), Expect = 4.0
 Identities = 22/77 (28%), Positives = 25/77 (32%)
 Frame = +3

Query: 36  DXDPKPXXXKTXAXVSXGXXXXXXXXXXXXXXXXXXXXXXXXXYWKXSQGXXXAXXXAXP 215
           D DPKP   +  A VS                            WK SQG   A   A P
Sbjct: 656 DYDPKPFVCQKAALVSTAVIASVVVVGAVVLGAAIFAGKKGYDAWKTSQGNVMAASQANP 715

Query: 216 LXEXXPSGGEXXIXXSP 266
           L     +GGE  +  SP
Sbjct: 716 LYTQSSNGGENPLYNSP 732

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3236559
Number of Hits to DB: 127,329,938
Number of extensions: 5894417
Number of successful extensions: 4055
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3988
Number of HSP's successfully gapped: 1
Length of query: 89
Length of database: 1,051,180,864
Length adjustment: 59
Effective length of query: 30
Effective length of database: 860,223,883
Effective search space: 25806716490
Effective search space used: 25806716490
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 27 (15.0 bits)
PSORT 

 psg: 0.88  gvh: 0.70  alm: 0.54  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 32.0 %: extracellular, including cell wall
	 20.0 %: cytoplasmic
	 20.0 %: mitochondrial
	 16.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar

>> prediction for Contig-U13159-1 is exc
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0